Table Of ContentPlant- Microbe Interactions
A constant research effort to understand plant-microbe interactions makes it indispensable to keep
abreast of the latest research developments. Researchers from a range of disciplines have used multiple
approaches to infer this field. With the advent of next-generation techniques, both molecular and compu-
tational, the field has entered a new phase. These approaches often result in massive information, which
is sometimes tangled and in need of further analysis. These types of analyses also require c utting- edge
data analytics as well as efficient statistical models.
Plant-Microbe Interactions: Harnessing Next- Generation Molecular Technologies for Sustainable
Agriculture provides a comprehensive picture of the modern- day analytics and approaches being used
to provide insights into the interactions between plant and microbe. A wide range of technologies are
explored along with practical guides toward these techniques. A detailed understanding of omics data in
various areas could be obtained from this compilation.
Key Features:
• Crosstalk between plant and microbe
• Overview of advanced molecular techniques used to study plant- microbe interaction
• Practical guide to technologies such as NGS
• Omics data analysis used to study plant-microbe interaction
• Role of soil metagenomics
• Advanced technologies such as nanotechnology and CRISPR serving to study plant-microbe
interaction
This book will serve as a great reference to various next-generation techniques in the field of plant- microbe
interaction, thereby helping to better understand the mechanism. This will also help budding researchers
shape their research in similar areas.
Advances and Applications in Biotechnology
Series Editor:
Dr. Gustavo Molina,
Dr. Vijai Kumar Gupta
Plant- Microbe Interactions: Harnessing Next- Generation
Molecular Technologies for Sustainable Agriculture
Edited by Jagajjit Sahu, Anukool Vaishnav, and Harikesh Bahadur Singh
For more information about this series, please visit:
https://www.routledge.com/Advances-and-Applications-in-Biotechnology/book-series/AABT
Plant- Microbe Interactions
Harnessing Next- Generation Molecular
Technologies for Sustainable Agriculture
Edited by
Jagajjit Sahu, Anukool Vaishnav, and
Harikesh Bahadur Singh
First edition published 2023
by CRC Press
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and by CRC Press
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© 2023 selection and editorial matter, Jagajjit Sahu, Anukool Vaishnav and Harikesh Bahadur Singh; individual chapters,
the contributors
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Library of Congress Cataloging‑in‑Publication Data
Names: Sahu, Jagajjit, editor. | Vaishnav, Anukool, editor. | Singh, H. B., Dr., editor.
Title: Plant-microbe interactions : harnessing next-generation molecular technologies for sustainable agriculture /
edited by Jagajjit Sahu, Anukool Vaishnav, and Harikesh Bahadur Singh.
Other titles: Harnessing next-generation molecular technologies for sustainable agriculture
Description: First edition | Boca Raton, FL : CRC Press, 2022. |
Includes bibliographical references and index.
Identifiers: LCCN 2022002806 (print) | LCCN 2022002807 (ebook) |
ISBN 9780367774424 (hardback) | ISBN 9780367774448 (paperback) | ISBN 9781003171416 (ebook)
Subjects: LCSH: Plant-microbe relationships. | Sustainable agriculture. | Alternative agriculture.
Classification: LCC QR351 .P574 2022 (print) | LCC QR351 (ebook) |
DDC 579/.178–dc23/eng/20220228
LC record available at https://lccn.loc.gov/2022002806
LC ebook record available at https://lccn.loc.gov/2022002807
ISBN: 9780367774424 ( hbk)
ISBN: 9780367774448 ( pbk)
ISBN: 9781003171416 ( ebk)
DOI: 10.1201/ 9781003171416
Typeset in Times
by codeMantra
Contents
Preface .....................................................................................................................................................vii
Editors .......................................................................................................................................................ix
Contributors ..............................................................................................................................................xi
1. Novel Approaches and Advanced Molecular Techniques for Crop Improvement ....................1
Dhanawantari L. Singha, Debajit Das, Ricky Raj Paswan,
Channakeshavaiah Chikkaputtaiah, and Sanjeev Kumar
2. The Chemical Dialogue during P lant– Microbe Interaction: Implications in
Sustainable Agriculture .................................................................................................................29
Gunajit Goswami, Sudipta Sankar Bora, Jugabrata Das, Trishna Sarmah, and
Madhumita Barooah
3. Implication of Microbial Signals: Plant Communication ...........................................................41
Manmeet Kaur and H.S. Sodhi
4. Molecular Aspects of Host– Pathogen Interaction ......................................................................59
Ashim Debnath, Ratul Moni Ram, Asha Kumari, Paromita Saikia, and
Dharmendra Singh Lagoriya
5. Omics: A Potential Tool to Delineate the Mechanism of Biocontrol Agents against
Plant Pathogens ..............................................................................................................................79
S. Harish, S. Parthasarathy, S.R. Prabhukarthikeyan, Arabinda Mahanty, Basavaraj Teli,
P.C. Rath, and K. Anandhi
6. Bioinformatics Approaches to Improve and Enhance the Understanding of Plant–
Microbe Interaction: A Review ....................................................................................................101
Surojit Sen and Sunayana Rathi
7. Plant– Microbe Interactions in the Age of Sequencing ..............................................................113
Kuntal Kumar Dey and Sebantee Ganguly
8. Metaomics Technologies in Understanding Ethnomedicinal Plants and Endophyte
Microbiome ...................................................................................................................................129
Bishal Pun, Fenella M.W. Nongkhlaw, and S.R. Joshi
9. P lant– Rhizomicrobiome Interactive Ecology through the Lenses of Multi- Omics and
Relevant Bioinformatics Approaches ..........................................................................................151
Siddhartha Pal and Kriti Sengupta
10. Future Prospects of N ext- Generation Sequencing .....................................................................163
Abdul Rehman, Hafiza Iqra Almas, Abdul Qayyum, Hongge Li, Zhen Peng,
Guangyong Qin, Yinhua Jia, Zhaoe Pan, Shoupu He, and Xiongming Du
11. Revisiting Molecular Techniques for Enhancing Sustainable Agriculture .............................191
Ankita Chatterjee
v
vi Contents
12. Nanotechnology in Plant Pathology: An Overview ................................................................... 205
Ratul Moni Ram, Prakash Jyoti Kalita, and H.B. Singh
13. An Overview of CRISPR and Gene Chip Technology to Study P lant–M icrobe
Interaction .................................................................................................................................. 225
Prassan Choudhary
14. Functional Genomic Approaches to Improve Rice Productivity through Leaf
Architecture .................................................................................................................................. 233
Robert Nepomuceno, Cristine Marie B. Brown, and Marilyn B. Brown
15. Tapping the Role of Plant Volatiles Inducing Multi- Trophic Interactions for
Sustainable Agricultural Production ......................................................................................... 245
Ratul Moni Ram, Ashim Debnath, Khumbarti Debbarma, Yengkhom Linthoingambi Devi,
and Jayakumar Pathma
16. Desiccation Tolerance in Orthodox and Recalcitrant Seeds .................................................... 265
Bahman F azeli-N asab, Raheba Jami, Naser Vahabi, Abdolhosein Rezaei, Ramin Piri, and
Moharam Valizadeh
17. Chemical Ecology in Belowground Plant Communication ...................................................... 283
Marcela Claudia Pagano, Bakhytzhan Yelikbayev, Eduardo J. Azevedo Correa, and
Neimar F. Duarte
18. Possible Bioremediation Strategies for Arsenic Detoxifcation by Consortium of
Benefcial Bacteria .........................................................................................................................291
Sathi Paul, Akansha Jain, Surbhi Shriti, and Sampa Das
Index ...................................................................................................................................................... 303
Preface
The interplay between microorganisms and plants has been fuctuating between boon and bane. The
illustrious behavior of microorganisms to maintain plant defense mechanism and furthermore its
potential to sustain plant health has been evident in innumerable publications. However, the r eal-w orld
implementation of such hypothetic information is still scanty. The use of traditional methods, which are
t ime-c onsuming, l abor-i ntensive, and costly in the long run, is an impediment to the realization of these
hypotheses. The conventional approaches fail to perceive empirical scenario inside the laboratories.
Scientists had been conducting such practices for quite a long period until the next-g eneration approaches
came into picture. These emerging perspectives are not only effcient and robust in understanding the
existent circumstances, but also less t ime-c onsuming. There has been an upsurge in the interest toward
these pragmatic approaches among the scientifc communities in the recent past. Interpretation of plant–
microbe relationship is not a new realm; however, the amount of unfolded information has unlimited
potential. To bring into play the next- generation technologies and approaches, the study of plant–m icrobe
interaction has reinforced some important information.
This book focuses on bringing together the latest fndings on various advanced molecular techniques
and other c utting- edge approaches along with their uses across various cases as well as future prospects.
The forethought is to cover all the available mainstream n ext-g eneration technologies for p lant– microbe
interaction studies in this book. It talks about the advanced molecular techniques in crop improvement
such as RNA interference, CRISPR/ Cas, and nanotechnology along with cutting-e dge technologies such
as n ext- generation sequencing ( NGS) and omics approaches. Most of the omics approaches fnd many
useful applications in bioinformatics support. Along with the advanced techniques, some of the chapters
also revisit stable techniques, which have potential use in studying p lant–m icrobe interaction in effec-
tive ways. This book also emphasizes the molecular basis of plant resistance mechanisms, the chemical
molecules and signals during interaction between plant and microbe, and the multi- trophic interactions
inducing secondary metabolites. Chapter 2 briefy covers about the benefcial microbes and how they
interact with plants through soil and root. This book also provides a detailed practical aspect of the
NGS technology and how it can be used to unravel the hidden information regarding p lant–m icrobe
interactions. In another effort to understand the genetic makeup in rice thereby improving its productiv-
ity, one chapter is completely dedicated to providing valuable functional genomics information. Almost
all the omics approaches have been discussed across several chapters to have a rigorous insight into
the available information and research gaps about the mechanism of plant– microbe interaction. A few
chapters provide very particular information such as metaomics approach to understand specifc interac-
tions between ethnomedicinal plants and endophyte microbiome, which can be of interest to many plant
biologists. It will mostly focus on the pitfalls of traditional technologies, advantages of the available
cutting- edge technologies, and future prospects of the emerging technologies in studying p lant– microbe
interrelation. We hope that this volume will serve as a reference book for students, scientists, teachers,
and researchers to understand the real scenario and prospects that can be achievable by organizing their
research on various aspects.
vii
Editors
Dr Jagajjit Sahu is currently the director of a start-up called GyanArras Academy, which he co-founded.
His primary area of expertise is bioinformatics, especially in the feld of genomics and data science. His
research interests focus on the improvement and development of effcient approaches for data analysis. He
received his PhD from the Department of Life Science and Bioinformatics, Assam University, India, and
has postdoctoral research experiences from University of Aberdeen, Banaras Hindu University, Assam
Agricultural University, and National Centre for Cell Science. Dr Sahu has a background in mathematics,
biotechnology, and bioinformatics. Having more than 12 years of experience, he has been able to publish
37 journal articles and a few book chapters. Dr Sahu has edited 16 manuscripts for the journal Archives of
Phytopathology and Plant Protection and two special issues for Current Genomics. He has presented his
research at several international conferences and acted as a resource person in many workshops. He has
also reviewed several manuscripts for such reputed journals as Briefngs in Bioinformatics, International
Journal of Molecular Sciences, Genes, and Sensors.
Dr. Anukool Vaishnav is working as a Post- Doctoral Scientist ( Swiss excellence fellow) at University
of Zurich, Switzerland. He is also associated with Department of Biotechnology, GLA University, India
as an Assistant Professor. He received his Ph.D. in Biosciences from Mody University of Science &
Technology, Sikar, India. He has operated SERB- National Postdoctoral Fellowship ( NPDF) at the
Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu
University, Varanasi, India. He has nine years of research experience in the feld of plant– microbe inter-
action. His research is mainly focused on microbial- mediated plant protection against biotic and abiotic
stresses and characterization of signaling molecules and secondary metabolites ( soluble and VOCs) in
plant holobionts. As an active researcher, he has about 50 publications including research articles, review
articles and book chapters for reputed journals and edited books. He is also editor of fve books published
with Springer and Elsevier. Recently, he has awarded one Indian patent and nine patents are still under
examination. He is an editorial member of the journal Frontiers in Microbiology and Current Genomics
He has been awarded with Swiss Excellence Fellowship and Young Scientist Awards from different
agencies.
Professor Harikesh Bahadur Singh is a Distinguished Professor in the Department of Biotechnology,
GLA University, Mathura, India. He has served as Professor & Head, Department of Mycology and
Plant Pathology, at Institute of Agricultural Sciences, Banaras Hindu University, India. He received
his Ph.D. in Botany from Department of Mycology and Plant Pathology, Banaras Hindu University,
Varanasi, India. His major research focus is on bioinoculants, biological control of plant pathogens,
and nanobiotechnology. Prof. Singh has been decorated with several prestigious national awards and
honors for his scientifc contributions in the feld of organic farming and translational agriculture, with
the notable being CSIR Technology Prize for Biological Sciences by Hon’ble Prime Minister of India,
M.S. Swaminathan Award by Society for Plant Research, Vigyan Bharti Award, and Prof. V.P. Bhide
Memorial Award by Society for Plant Research. He has 20 US patents, which have successfully been
transferred for commercial production of biopesticides to several industrial houses in India. He has con-
tributed to more than 300 publications and 27 books.
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